SBMLExternalValidator(SBMLExternalValidator arg0) : this(libsbmlPINVOKE.new_SBMLExternalValidator__SWIG_1(SBMLExternalValidator.getCPtr(arg0)), true)
{
if (libsbmlPINVOKE.SWIGPendingException.Pending)
{
throw libsbmlPINVOKE.SWIGPendingException.Retrieve();
}
}
internal static HandleRef getCPtrAndDisown(SBMLExternalValidator obj)
{
HandleRef ptr = new HandleRef(null, IntPtr.Zero);
if (obj != null)
{
ptr = obj.swigCPtr;
obj.swigCMemOwn = false;
}
return(ptr);
}
/**
* Copy constructor.
*/
/* libsbml-internal */
public SBMLExternalValidator(SBMLExternalValidator arg0)
: this(libsbmlPINVOKE.new_SBMLExternalValidator__SWIG_1(SBMLExternalValidator.getCPtr(arg0)), true)
{
if (libsbmlPINVOKE.SWIGPendingException.Pending) throw libsbmlPINVOKE.SWIGPendingException.Retrieve();
}
internal static HandleRef getCPtrAndDisown(SBMLExternalValidator obj)
{
HandleRef ptr = new HandleRef(null, IntPtr.Zero);
if (obj != null)
{
ptr = obj.swigCPtr;
obj.swigCMemOwn = false;
}
return ptr;
}
internal static HandleRef getCPtr(SBMLExternalValidator obj)
{
return (obj == null) ? new HandleRef(null, IntPtr.Zero) : obj.swigCPtr;
}
internal static HandleRef getCPtr(SBMLExternalValidator obj)
{
return((obj == null) ? new HandleRef(null, IntPtr.Zero) : obj.swigCPtr);
}
public static int Main(string[] args)
{
if (args.Length < 3)
{
Console.WriteLine("Usage: callExternalValidator filename externalValidator [ tempSBMLFile outputFile [ ADDITIONAL-ARGS] ]");
return 1;
}
string filename = args[0];
// read additional args
string externalValidator = args[1];
string tempSBMLFileName = filename + "_temp.xml";
if (args.Length > 2)
tempSBMLFileName = args[2];
string outputFile = filename + "_out.xml";
if (args.Length > 3)
outputFile = args[3];
List<string> additionalArgs = new List<string>();
for (int i = 4; i < args.Length; i++)
additionalArgs.Add(args[i]);
// add the output file as additional arg
additionalArgs.Add(outputFile);
// read the file name
SBMLDocument document = libsbml.readSBML(filename);
// create a new external validator that will write the model to
// tempFile, then call teh externalValidator with the given number of arguments
// to produce the output file. This output file will then be parsed and its
// errors will be added to the error log.
SBMLExternalValidator validator = new SBMLExternalValidator();
validator.setProgram(externalValidator);
validator.setSBMLFileName(tempSBMLFileName);
validator.setOutputFileName(outputFile);
foreach (string item in additionalArgs)
{
validator.addArgument(item);
}
// this means that the external program will be called with the following arguments
//
// externalValidator tempSBMLFileName additionalArgs
//
// (where additionalargs contains the output file as last argument)
//
// The output file that is generated should be an XML document following the
// Validator XML format as described here: http://sbml.org/validator/api/#xml
//
// disable all regular checks
document.setApplicableValidators(0);
// add a custom validator
document.addValidator(validator);
// check consistency like before
int numErrors = (int)document.checkConsistency();
// print errors and warnings
document.printErrors();
// return number of errors
return numErrors;
}
